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Calcium in PDB 4cag: Bacillus Licheniformis Rhamnogalacturonan Lyase PL11

Enzymatic activity of Bacillus Licheniformis Rhamnogalacturonan Lyase PL11

All present enzymatic activity of Bacillus Licheniformis Rhamnogalacturonan Lyase PL11:
4.2.2.23;

Protein crystallography data

The structure of Bacillus Licheniformis Rhamnogalacturonan Lyase PL11, PDB code: 4cag was solved by H.Otten, I.I.C.Rodrigues Da Silva, C.Jers, C.Nyffenegger, D.M.Larsen, J.D.Mikkelsen, S.Larsen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.731 / 2.50
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 95.780, 95.780, 155.650, 90.00, 90.00, 90.00
R / Rfree (%) 15.89 / 22.57

Calcium Binding Sites:

The binding sites of Calcium atom in the Bacillus Licheniformis Rhamnogalacturonan Lyase PL11 (pdb code 4cag). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 10 binding sites of Calcium where determined in the Bacillus Licheniformis Rhamnogalacturonan Lyase PL11, PDB code: 4cag:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 10 in 4cag

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Calcium binding site 1 out of 10 in the Bacillus Licheniformis Rhamnogalacturonan Lyase PL11


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Bacillus Licheniformis Rhamnogalacturonan Lyase PL11 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca601

b:0.3
occ:1.00
OD1 A:ASP371 2.0 15.1 1.0
OE2 A:GLU392 2.1 26.9 1.0
NE2 A:HIS369 2.1 12.2 1.0
NE2 A:HIS333 2.1 13.9 1.0
O3 A:GOL611 2.3 16.3 1.0
O2 A:GOL611 2.3 19.1 1.0
CG A:ASP371 2.8 17.9 1.0
CD A:GLU392 2.8 29.8 1.0
OD2 A:ASP371 2.9 24.2 1.0
CD2 A:HIS333 3.0 13.0 1.0
HD2 A:HIS333 3.1 15.6 1.0
CE1 A:HIS369 3.1 14.6 1.0
CD2 A:HIS369 3.1 17.5 1.0
CE1 A:HIS333 3.2 17.7 1.0
C3 A:GOL611 3.2 24.4 1.0
C2 A:GOL611 3.2 34.5 1.0
HE1 A:HIS369 3.3 17.6 1.0
HD2 A:HIS369 3.3 21.1 1.0
HG3 A:GLU392 3.4 34.3 1.0
OE1 A:GLU392 3.5 32.5 1.0
HE1 A:HIS333 3.5 21.2 1.0
H2 A:GOL611 3.5 41.5 1.0
CG A:GLU392 3.7 28.6 1.0
H11 A:GOL611 3.7 29.3 1.0
O A:HOH2157 4.0 27.6 1.0
HG2 A:GLU392 4.1 34.3 1.0
OH A:TYR296 4.1 20.0 1.0
H12 A:GOL611 4.1 29.3 1.0
CG A:HIS333 4.2 15.6 1.0
HE1 A:TYR296 4.2 16.4 1.0
ND1 A:HIS369 4.2 14.5 1.0
ND1 A:HIS333 4.2 16.9 1.0
CB A:ASP371 4.2 13.8 1.0
CG A:HIS369 4.2 13.9 1.0
HA A:ASP371 4.2 18.2 1.0
HH A:TYR296 4.6 24.0 1.0
O A:GLY370 4.6 14.2 1.0
C1 A:GOL611 4.6 32.0 1.0
CA A:ASP371 4.7 15.2 1.0
HE2 A:TYR565 4.7 20.3 1.0
HB2 A:ASP371 4.7 16.6 1.0
C A:GLY370 4.7 15.5 1.0
HB3 A:ASP371 4.8 16.6 1.0
N A:ASP371 4.8 17.5 1.0
CE1 A:TYR296 4.9 13.7 1.0
CZ A:TYR296 4.9 12.4 1.0
HD1 A:HIS369 5.0 17.4 1.0

Calcium binding site 2 out of 10 in 4cag

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Calcium binding site 2 out of 10 in the Bacillus Licheniformis Rhamnogalacturonan Lyase PL11


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Bacillus Licheniformis Rhamnogalacturonan Lyase PL11 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca602

b:11.4
occ:1.00
O A:GLY564 2.3 11.8 1.0
OD1 A:ASN566 2.3 10.1 1.0
O A:ASN562 2.4 5.8 1.0
O A:HOH2046 2.5 15.2 1.0
OD2 A:ASP123 2.5 11.4 1.0
O A:HOH2045 2.5 10.1 1.0
CG A:ASP123 3.4 10.2 1.0
C A:GLY564 3.5 9.3 1.0
C A:ASN562 3.5 8.2 1.0
H A:ASN566 3.5 9.0 1.0
CG A:ASN566 3.5 9.1 1.0
O A:HOH2044 3.6 17.1 1.0
HZ2 A:LYS140 3.8 10.2 1.0
N A:GLY564 3.8 7.2 1.0
OD1 A:ASP123 3.8 9.8 1.0
HD22 A:ASN566 3.9 5.3 1.0
HA A:ASN562 3.9 9.0 1.0
H A:GLY564 4.0 8.6 1.0
O A:HOH2042 4.0 10.8 1.0
C A:VAL563 4.0 11.0 1.0
HA A:TYR565 4.1 14.3 1.0
CA A:GLY564 4.1 9.8 1.0
ND2 A:ASN566 4.2 4.4 1.0
HB2 A:ALA183 4.2 10.3 1.0
N A:ASN566 4.2 7.5 1.0
O A:VAL563 4.3 11.9 1.0
CA A:ASN562 4.3 7.5 1.0
HA2 A:GLY564 4.3 11.8 1.0
N A:VAL563 4.4 7.4 1.0
HA A:ALA183 4.4 13.7 1.0
HZ1 A:LYS140 4.5 10.2 1.0
O A:ALA183 4.5 11.7 1.0
NZ A:LYS140 4.5 8.5 1.0
N A:TYR565 4.5 11.4 1.0
HB2 A:ASN562 4.5 11.0 1.0
HA A:VAL563 4.6 10.3 1.0
CB A:ASP123 4.6 12.8 1.0
CA A:VAL563 4.6 8.6 1.0
O A:HOH2053 4.6 9.1 1.0
HB3 A:ASP123 4.6 15.3 1.0
CA A:TYR565 4.7 11.9 1.0
HB2 A:ASP123 4.7 15.3 1.0
CB A:ASN566 4.7 5.3 1.0
HA A:ASN566 4.8 12.0 1.0
CA A:ASN566 4.8 10.0 1.0
HD1 A:TYR565 4.9 17.0 1.0
CB A:ALA183 4.9 8.6 1.0
C A:TYR565 4.9 10.2 1.0
O A:GLN561 4.9 7.7 1.0
HZ3 A:LYS140 5.0 10.2 1.0

Calcium binding site 3 out of 10 in 4cag

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Calcium binding site 3 out of 10 in the Bacillus Licheniformis Rhamnogalacturonan Lyase PL11


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Bacillus Licheniformis Rhamnogalacturonan Lyase PL11 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca603

b:11.1
occ:1.00
OE2 A:GLU472 2.2 9.8 1.0
OD1 A:ASP466 2.4 11.1 1.0
OD1 A:ASP468 2.4 13.8 1.0
O A:GLN470 2.5 13.7 1.0
O A:HOH2200 2.5 11.6 1.0
OE1 A:GLU472 2.5 14.8 1.0
O A:ASP468 2.5 13.7 1.0
CD A:GLU472 2.7 12.5 1.0
C A:ASP468 3.3 15.0 1.0
H A:ASP468 3.3 13.1 1.0
CG A:ASP468 3.4 12.7 1.0
CG A:ASP466 3.4 17.5 1.0
C A:GLN470 3.5 11.3 1.0
H A:ASP466 3.7 16.5 1.0
N A:ASP468 3.7 10.9 1.0
HZ3 A:LYS481 3.8 17.2 1.0
CA A:ASP468 3.8 15.9 1.0
H A:GLN470 3.9 18.4 1.0
H A:TRP465 3.9 18.7 1.0
HA A:ARG471 3.9 19.8 1.0
O A:ASP466 3.9 15.2 1.0
OD2 A:ASP466 4.0 17.7 1.0
N A:GLN470 4.0 15.4 1.0
HD1 A:TRP464 4.1 18.6 1.0
C A:ASP466 4.1 13.6 1.0
HB2 A:GLN470 4.1 16.5 1.0
HZ1 A:LYS481 4.1 17.2 1.0
N A:LEU469 4.2 10.6 1.0
N A:ASP466 4.2 13.8 1.0
CB A:ASP468 4.2 7.4 1.0
OD2 A:ASP468 4.2 14.0 1.0
CA A:GLN470 4.2 17.6 1.0
CG A:GLU472 4.3 18.2 1.0
HA A:TRP464 4.3 15.5 1.0
NZ A:LYS481 4.3 14.3 1.0
HZ2 A:LYS481 4.4 17.2 1.0
N A:ARG471 4.4 10.4 1.0
C A:LEU469 4.4 14.9 1.0
CA A:ASP466 4.5 12.3 1.0
CB A:ASP466 4.5 11.2 1.0
CA A:ARG471 4.5 16.5 1.0
HA A:LEU469 4.5 17.0 1.0
HG3 A:GLU472 4.6 21.8 1.0
HG2 A:GLU472 4.6 21.8 1.0
CB A:GLN470 4.6 13.8 1.0
N A:TRP465 4.6 15.6 1.0
H A:GLU472 4.6 12.9 1.0
CA A:LEU469 4.7 14.2 1.0
N A:GLY467 4.7 15.5 1.0
C A:GLY467 4.7 14.2 1.0
HA A:ASP468 4.7 19.0 1.0
HB3 A:ASP468 4.8 8.9 1.0
H A:LEU469 4.8 12.7 1.0
C A:ARG471 4.8 18.4 1.0
N A:GLU472 4.8 10.8 1.0
HB3 A:GLN470 4.8 16.5 1.0
HH2 A:TRP518 4.8 17.4 1.0
HB2 A:ASP468 4.9 8.9 1.0

Calcium binding site 4 out of 10 in 4cag

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Calcium binding site 4 out of 10 in the Bacillus Licheniformis Rhamnogalacturonan Lyase PL11


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Bacillus Licheniformis Rhamnogalacturonan Lyase PL11 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca604

b:17.2
occ:1.00
OE2 A:GLU436 2.3 14.5 1.0
O A:ASP429 2.3 19.1 1.0
O A:HOH2178 2.3 14.8 1.0
O A:TYR432 2.4 24.0 1.0
OE1 A:GLU436 2.4 15.4 1.0
O A:GLY434 2.4 20.0 1.0
OD1 A:ASP427 2.4 15.8 1.0
CD A:GLU436 2.7 13.3 1.0
H A:ASP429 3.3 25.6 1.0
HA A:ASP427 3.3 18.2 1.0
CG A:ASP427 3.3 16.1 1.0
C A:ASP429 3.4 16.0 1.0
C A:GLY434 3.6 24.0 1.0
C A:TYR432 3.6 18.2 1.0
HB2 A:TYR432 3.7 18.1 1.0
HB3 A:ASP429 3.7 18.0 1.0
H A:TYR432 3.7 21.9 1.0
H A:GLY434 3.9 29.8 1.0
N A:ASP429 4.0 21.3 1.0
H A:GLU436 4.0 15.9 1.0
HA A:PRO430 4.0 19.3 1.0
HA A:ALA435 4.0 23.1 1.0
N A:GLY434 4.1 24.9 1.0
CA A:ASP427 4.1 15.2 1.0
CB A:ASP427 4.1 12.8 1.0
HB2 A:ASP427 4.1 15.3 1.0
CA A:ASP429 4.1 15.2 1.0
OD2 A:ASP427 4.1 17.0 1.0
H A:ILE428 4.1 23.2 1.0
CG A:GLU436 4.2 20.1 1.0
O A:HOH2185 4.2 16.1 1.0
HA A:GLU433 4.3 36.0 1.0
N A:GLU436 4.3 13.3 1.0
CA A:TYR432 4.4 19.0 1.0
CB A:ASP429 4.4 15.0 1.0
N A:PRO430 4.4 16.7 1.0
N A:TYR432 4.4 18.2 1.0
C A:GLU433 4.4 25.7 1.0
CB A:TYR432 4.5 15.1 1.0
CA A:GLY434 4.5 24.1 1.0
N A:ALA435 4.5 20.0 1.0
N A:ILE428 4.5 19.4 1.0
CA A:ALA435 4.5 19.2 1.0
HG3 A:GLU436 4.5 24.1 1.0
CA A:PRO430 4.6 16.1 1.0
N A:GLU433 4.6 25.2 1.0
C A:ALA435 4.6 21.3 1.0
HG2 A:GLU436 4.6 24.1 1.0
O A:HOH2180 4.6 20.9 1.0
C A:ASP427 4.6 20.5 1.0
CA A:GLU433 4.7 30.1 1.0
HB2 A:ASP429 4.9 18.0 1.0
HB3 A:TYR432 4.9 18.1 1.0
O A:GLU433 5.0 28.9 1.0
C A:PRO430 5.0 20.2 1.0
HA3 A:GLY434 5.0 28.9 1.0
HB3 A:ASP427 5.0 15.3 1.0

Calcium binding site 5 out of 10 in 4cag

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Calcium binding site 5 out of 10 in the Bacillus Licheniformis Rhamnogalacturonan Lyase PL11


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Bacillus Licheniformis Rhamnogalacturonan Lyase PL11 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca605

b:14.9
occ:1.00
OE2 A:GLU200 2.1 14.7 1.0
O A:LYS198 2.2 17.7 1.0
OD1 A:ASP194 2.4 27.4 1.0
OD1 A:ASP196 2.4 17.6 1.0
OD1 A:ASP192 2.4 15.1 1.0
OE1 A:GLU200 2.6 15.1 1.0
CD A:GLU200 2.6 13.2 1.0
H A:ASP196 3.1 22.6 1.0
CG A:ASP196 3.1 19.1 1.0
CG A:ASP194 3.1 17.0 1.0
HA A:ASP192 3.2 22.1 1.0
H A:ASP194 3.3 23.8 1.0
CG A:ASP192 3.4 16.6 1.0
C A:LYS198 3.4 18.3 1.0
OD2 A:ASP194 3.4 29.2 1.0
H A:LYS198 3.4 20.9 1.0
OD2 A:ASP196 3.6 24.1 1.0
H A:GLY195 3.7 25.7 1.0
N A:ASP196 3.8 18.8 1.0
CA A:ASP192 3.9 18.4 1.0
H A:PHE193 4.0 16.6 1.0
HB2 A:LYS198 4.0 29.1 1.0
HA A:ALA199 4.0 19.5 1.0
N A:LYS198 4.0 17.4 1.0
CB A:ASP192 4.0 13.2 1.0
CB A:ASP196 4.1 11.5 1.0
N A:ASP194 4.1 19.8 1.0
HB3 A:ASP196 4.1 13.8 1.0
HB2 A:ASP192 4.1 15.8 1.0
CG A:GLU200 4.2 15.8 1.0
CA A:LYS198 4.2 18.5 1.0
N A:PHE193 4.2 13.9 1.0
C A:ASP192 4.2 15.2 1.0
H A:GLY197 4.2 20.2 1.0
N A:GLY195 4.3 21.4 1.0
OD2 A:ASP192 4.3 16.6 1.0
N A:ALA199 4.4 15.7 1.0
CA A:ASP196 4.4 16.4 1.0
O A:HOH2090 4.4 22.7 1.0
CB A:ASP194 4.4 19.6 1.0
HG3 A:GLU200 4.4 18.9 1.0
H A:GLU200 4.5 14.2 1.0
CA A:ALA199 4.5 16.2 1.0
N A:GLY197 4.5 16.9 1.0
HG2 A:GLU200 4.5 18.9 1.0
CA A:ASP194 4.6 19.2 1.0
CB A:LYS198 4.6 24.2 1.0
C A:ALA199 4.6 15.2 1.0
N A:GLU200 4.7 11.8 1.0
C A:ASP196 4.7 17.0 1.0
C A:ASP194 4.8 14.2 1.0
HB3 A:ASP194 4.8 23.5 1.0
C A:GLY195 4.8 16.0 1.0
HB2 A:ASP196 4.9 13.8 1.0
HB3 A:ASP192 5.0 15.8 1.0
HE2 A:PHE306 5.0 16.4 1.0

Calcium binding site 6 out of 10 in 4cag

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Calcium binding site 6 out of 10 in the Bacillus Licheniformis Rhamnogalacturonan Lyase PL11


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Bacillus Licheniformis Rhamnogalacturonan Lyase PL11 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca606

b:23.9
occ:1.00
OD2 A:ASP343 2.3 21.6 1.0
OD1 A:ASP356 2.4 30.0 1.0
OD2 A:ASP341 2.5 17.0 1.0
ND1 A:HIS357 2.6 24.3 1.0
OE2 A:GLU347 2.6 15.1 1.0
CG A:ASP356 3.1 28.7 1.0
HE1 A:HIS357 3.1 23.5 1.0
OD2 A:ASP356 3.1 43.0 1.0
CE1 A:HIS357 3.2 19.6 1.0
CG A:ASP343 3.3 26.0 1.0
CG A:ASP341 3.3 17.9 1.0
H A:HIS357 3.4 24.1 1.0
OD1 A:ASP341 3.4 22.1 1.0
CD A:GLU347 3.5 22.2 1.0
OD1 A:ASP343 3.5 25.6 1.0
HG3 A:GLU347 3.6 23.4 1.0
CA A:CA607 3.8 29.1 1.0
CG A:HIS357 3.8 32.9 1.0
HB3 A:HIS357 3.8 22.5 1.0
CG A:GLU347 4.0 19.5 1.0
HB2 A:LYS345 4.1 25.1 1.0
HG2 A:GLU347 4.1 23.4 1.0
O A:HOH2149 4.1 17.4 1.0
N A:HIS357 4.2 20.1 1.0
CB A:HIS357 4.3 18.8 1.0
OE1 A:GLU347 4.4 19.5 1.0
NE2 A:HIS357 4.4 21.8 1.0
HA A:ASP356 4.5 27.9 1.0
CB A:ASP356 4.5 22.6 1.0
CB A:ASP343 4.6 18.7 1.0
HB3 A:ASP343 4.6 22.4 1.0
CD2 A:HIS357 4.7 22.5 1.0
CB A:ASP341 4.8 25.2 1.0
HD2 A:LYS345 4.8 30.2 1.0
CA A:ASP356 4.9 23.2 1.0
CA A:HIS357 5.0 14.7 1.0
O A:LYS345 5.0 21.4 1.0
HD11 A:LEU362 5.0 30.3 1.0
HB3 A:ASP356 5.0 27.2 1.0
HB3 A:ASP341 5.0 30.2 1.0

Calcium binding site 7 out of 10 in 4cag

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Calcium binding site 7 out of 10 in the Bacillus Licheniformis Rhamnogalacturonan Lyase PL11


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Bacillus Licheniformis Rhamnogalacturonan Lyase PL11 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca607

b:29.1
occ:1.00
OD1 A:ASP343 2.3 25.6 1.0
OE2 A:GLU347 2.3 15.1 1.0
O A:LYS345 2.3 21.4 1.0
OD1 A:ASP341 2.3 22.1 1.0
OD1 A:ASP339 2.5 20.5 1.0
OE1 A:GLU347 2.7 19.5 1.0
CD A:GLU347 2.8 22.2 1.0
HA A:ASP339 3.0 23.9 1.0
H A:LYS345 3.0 23.0 1.0
CG A:ASP343 3.1 26.0 1.0
H A:ASP343 3.1 26.4 1.0
H A:ASP341 3.2 24.5 1.0
CG A:ASP339 3.2 15.2 1.0
C A:LYS345 3.3 14.5 1.0
CG A:ASP341 3.4 17.9 1.0
N A:LYS345 3.6 19.1 1.0
HB2 A:LYS345 3.6 25.1 1.0
CA A:ASP339 3.7 19.9 1.0
HB2 A:ASP339 3.7 14.5 1.0
OD2 A:ASP343 3.7 21.6 1.0
H A:VAL340 3.7 16.8 1.0
CB A:ASP339 3.7 12.1 1.0
N A:ASP343 3.8 22.0 1.0
CA A:CA606 3.8 23.9 1.0
H A:GLY344 3.8 21.1 1.0
H A:GLY342 3.9 36.1 1.0
CA A:LYS345 3.9 20.2 1.0
OD2 A:ASP341 3.9 17.0 1.0
OD2 A:ASP339 4.0 17.6 1.0
N A:ASP341 4.0 20.4 1.0
N A:VAL340 4.1 14.0 1.0
N A:GLY344 4.1 17.6 1.0
C A:ASP339 4.1 17.8 1.0
CB A:ASP343 4.2 18.7 1.0
CA A:ASP343 4.2 15.6 1.0
CB A:LYS345 4.2 20.9 1.0
N A:GLY342 4.2 30.1 1.0
C A:ASP343 4.3 19.8 1.0
CG A:GLU347 4.4 19.5 1.0
HA A:ASP346 4.4 17.9 1.0
N A:ASP346 4.4 15.4 1.0
CB A:ASP341 4.5 25.2 1.0
CA A:ASP341 4.5 26.8 1.0
C A:GLY344 4.5 21.3 1.0
C A:ASP341 4.6 27.1 1.0
HB3 A:ASP343 4.6 22.4 1.0
HG3 A:GLU347 4.6 23.4 1.0
HB3 A:ASP339 4.6 14.5 1.0
H A:GLU347 4.6 16.6 1.0
C A:GLY342 4.7 19.2 1.0
HG2 A:GLU347 4.7 23.4 1.0
HB3 A:LYS345 4.8 25.1 1.0
HA A:LYS345 4.8 24.2 1.0
CA A:ASP346 4.8 14.9 1.0
CA A:GLY344 4.9 13.9 1.0
N A:GLU347 4.9 13.8 1.0
HB3 A:HIS357 4.9 22.5 1.0
HG23 A:VAL340 4.9 21.4 1.0
N A:ASP339 4.9 16.5 1.0
C A:ASP346 4.9 17.5 1.0
HB2 A:ASP343 4.9 22.4 1.0
CA A:GLY342 5.0 22.8 1.0

Calcium binding site 8 out of 10 in 4cag

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Calcium binding site 8 out of 10 in the Bacillus Licheniformis Rhamnogalacturonan Lyase PL11


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Bacillus Licheniformis Rhamnogalacturonan Lyase PL11 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca608

b:46.9
occ:1.00
OD1 A:ASN377 2.3 14.1 1.0
O A:GLY384 2.4 19.6 1.0
O A:ARG382 2.5 33.1 1.0
O A:ASP379 2.5 15.3 1.0
OE2 A:GLU386 2.5 25.0 1.0
OE1 A:GLU386 2.9 21.6 1.0
HB2 A:ARG382 3.0 27.1 1.0
CD A:GLU386 3.1 21.4 1.0
CG A:ASN377 3.1 12.4 1.0
HA A:ASN377 3.4 21.8 1.0
C A:ASP379 3.4 18.3 1.0
C A:ARG382 3.5 22.2 1.0
HA A:PRO380 3.6 21.9 1.0
H A:ASP379 3.6 21.9 1.0
C A:GLY384 3.6 24.3 1.0
HD22 A:ASN377 3.7 23.4 1.0
CB A:ARG382 3.8 22.6 1.0
ND2 A:ASN377 3.8 19.5 1.0
H A:ARG382 3.8 31.5 1.0
HA A:LEU385 3.8 23.3 1.0
HB3 A:ARG382 3.9 27.1 1.0
HB3 A:ASP379 3.9 23.2 1.0
CA A:ARG382 4.0 25.7 1.0
CA A:ASN377 4.0 18.1 1.0
CB A:ASN377 4.1 21.4 1.0
N A:ASP379 4.1 18.3 1.0
N A:ARG382 4.2 26.3 1.0
CA A:PRO380 4.2 18.2 1.0
H A:LEU378 4.2 24.1 1.0
C A:PRO383 4.2 35.6 1.0
N A:GLY384 4.2 19.3 1.0
N A:PRO380 4.3 17.6 1.0
CA A:ASP379 4.3 19.9 1.0
C A:ASN377 4.4 19.4 1.0
HB2 A:ASN377 4.4 25.7 1.0
H A:GLY384 4.4 23.2 1.0
N A:LEU378 4.4 20.1 1.0
HA A:PRO383 4.5 35.5 1.0
O A:PRO383 4.5 28.8 1.0
N A:LEU385 4.5 24.5 1.0
HD21 A:ASN377 4.5 23.4 1.0
CA A:LEU385 4.5 19.4 1.0
C A:PRO380 4.5 19.6 1.0
N A:PRO383 4.5 31.1 1.0
CG A:GLU386 4.6 22.7 1.0
CA A:GLY384 4.6 26.4 1.0
CB A:ASP379 4.6 19.3 1.0
CA A:PRO383 4.6 29.6 1.0
HD21 A:LEU385 4.8 20.5 1.0
HE A:ARG382 4.9 26.7 1.0
HG3 A:GLU386 4.9 27.2 1.0
C A:LEU385 4.9 18.1 1.0
O A:PRO380 4.9 25.0 1.0
HG2 A:GLU386 4.9 27.2 1.0
HB3 A:ASN377 4.9 25.7 1.0
N A:SER381 5.0 19.9 1.0
HA A:ARG382 5.0 30.9 1.0

Calcium binding site 9 out of 10 in 4cag

Go back to Calcium Binding Sites List in 4cag
Calcium binding site 9 out of 10 in the Bacillus Licheniformis Rhamnogalacturonan Lyase PL11


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of Bacillus Licheniformis Rhamnogalacturonan Lyase PL11 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca609

b:42.0
occ:1.00
OD1 A:ASP130 2.3 17.2 1.0
OD1 A:ASP128 2.5 23.5 1.0
OE1 A:GLU136 2.5 13.4 1.0
O A:GLN134 2.6 15.5 1.0
OD1 A:ASP132 2.7 27.2 1.0
OE2 A:GLU136 2.7 18.9 1.0
CD A:GLU136 3.0 18.6 1.0
H A:ASP130 3.1 27.3 1.0
HA A:ASP128 3.1 21.8 1.0
H A:ASP132 3.2 22.7 1.0
CG A:ASP132 3.4 24.3 1.0
H A:GLY131 3.4 28.9 1.0
CG A:ASP128 3.4 16.4 1.0
H A:GLN134 3.5 27.8 1.0
CG A:ASP130 3.5 25.3 1.0
HZ2 A:LYS164 3.5 29.6 1.0
H A:LEU129 3.5 19.2 1.0
HZ1 A:LYS164 3.7 29.6 1.0
OD2 A:ASP132 3.7 20.2 1.0
C A:GLN134 3.7 16.6 1.0
CA A:ASP128 3.9 18.1 1.0
N A:LEU129 3.9 16.0 1.0
N A:ASP130 4.0 22.7 1.0
N A:ASP132 4.0 18.9 1.0
NZ A:LYS164 4.0 24.7 1.0
OD2 A:ASP130 4.1 25.3 1.0
N A:GLY131 4.1 24.1 1.0
HB3 A:GLN134 4.1 27.8 1.0
C A:ASP128 4.2 21.6 1.0
H A:GLY133 4.2 30.0 1.0
CB A:ASP128 4.2 12.2 1.0
N A:GLN134 4.2 23.1 1.0
OD2 A:ASP128 4.2 18.5 1.0
H A:GLU136 4.3 21.5 1.0
HA A:TYR135 4.5 18.2 1.0
CB A:ASP132 4.5 24.7 1.0
CA A:GLN134 4.5 25.0 1.0
CG A:GLU136 4.5 14.9 1.0
HB2 A:ASP128 4.5 14.6 1.0
N A:GLU136 4.6 17.9 1.0
HZ3 A:LYS164 4.6 29.6 1.0
N A:GLY133 4.6 25.0 1.0
HB3 A:ASP132 4.6 29.6 1.0
CA A:ASP132 4.6 23.6 1.0
HB2 A:LEU129 4.6 22.2 1.0
CA A:ASP130 4.6 23.7 1.0
CB A:ASP130 4.7 16.6 1.0
O A:HOH2052 4.7 16.2 1.0
HE2 A:LYS164 4.7 35.1 1.0
C A:TYR135 4.7 21.5 1.0
N A:TYR135 4.7 15.0 1.0
C A:ASP130 4.7 23.4 1.0
CB A:GLN134 4.8 23.2 1.0
CA A:TYR135 4.9 15.2 1.0
O A:GLY127 4.9 21.9 1.0
HG2 A:GLU136 4.9 17.9 1.0
C A:ASP132 4.9 27.3 1.0
CA A:LEU129 4.9 19.7 1.0
CA A:GLY131 4.9 19.9 1.0
C A:GLY131 4.9 18.7 1.0
C A:LEU129 5.0 19.7 1.0
HG3 A:GLU136 5.0 17.9 1.0
HB2 A:GLU136 5.0 21.2 1.0

Calcium binding site 10 out of 10 in 4cag

Go back to Calcium Binding Sites List in 4cag
Calcium binding site 10 out of 10 in the Bacillus Licheniformis Rhamnogalacturonan Lyase PL11


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 10 of Bacillus Licheniformis Rhamnogalacturonan Lyase PL11 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca610

b:14.4
occ:1.00
O A:HOH2220 2.3 14.0 1.0
O A:LEU515 2.3 17.6 1.0
O A:ARG519 2.3 16.7 1.0
O A:ASP517 2.4 16.8 1.0
OD1 A:ASP513 2.4 15.0 1.0
OE2 A:GLU521 2.5 11.0 1.0
OE1 A:GLU521 2.6 16.1 1.0
CD A:GLU521 2.9 13.2 1.0
CG A:ASP513 3.4 12.7 1.0
HA A:ASP513 3.4 12.8 1.0
C A:ARG519 3.5 14.9 1.0
C A:ASP517 3.5 20.4 1.0
C A:LEU515 3.5 22.2 1.0
H A:LEU515 3.5 22.8 1.0
HB3 A:ASP517 3.7 29.6 1.0
C A:GLY516 3.9 17.2 1.0
N A:ARG519 3.9 17.1 1.0
H A:ARG519 4.0 20.5 1.0
O A:GLY516 4.0 20.3 1.0
N A:ASP517 4.0 16.9 1.0
HB2 A:ASP513 4.0 13.1 1.0
CB A:ASP513 4.1 10.9 1.0
HA A:GLU520 4.1 15.7 1.0
HG1 A:THR536 4.1 14.8 1.0
CA A:ASP513 4.1 10.7 1.0
CA A:ASP517 4.1 25.7 1.0
O A:HOH2012 4.2 9.8 1.0
N A:LEU515 4.2 19.0 1.0
OD2 A:ASP513 4.2 12.1 1.0
CA A:ARG519 4.2 14.9 1.0
C A:TRP518 4.3 14.7 1.0
CB A:ASP517 4.3 24.6 1.0
O A:HOH2221 4.4 12.4 1.0
HA3 A:GLY516 4.4 27.3 1.0
N A:GLY516 4.4 19.4 1.0
CG A:GLU521 4.4 16.1 1.0
CA A:GLY516 4.4 22.7 1.0
CA A:LEU515 4.4 15.9 1.0
N A:GLU520 4.4 14.2 1.0
N A:TRP518 4.5 22.6 1.0
H A:ASP517 4.5 20.2 1.0
H A:GLU521 4.5 20.1 1.0
HB2 A:ARG519 4.5 23.5 1.0
HA A:TRP518 4.5 18.8 1.0
C A:ASP513 4.6 14.9 1.0
CA A:GLU520 4.6 13.0 1.0
HB2 A:ASP517 4.6 29.6 1.0
CA A:TRP518 4.7 15.7 1.0
N A:GLU521 4.7 16.7 1.0
O A:HOH2219 4.7 11.1 1.0
HB2 A:LEU515 4.7 22.1 1.0
N A:ILE514 4.7 16.3 1.0
C A:GLU520 4.7 13.7 1.0
OG1 A:THR536 4.7 12.3 1.0
HB3 A:ARG519 4.8 23.5 1.0
O A:TRP518 4.8 12.7 1.0
HG2 A:GLU521 4.8 19.3 1.0
HG3 A:GLU521 4.8 19.3 1.0
CB A:ARG519 4.8 19.6 1.0
HG A:SER30 5.0 17.2 1.0

Reference:

I.R.Silva, C.Jers, H.Otten, C.Nyffenegger, D.M.Larsen, P.M.F.Derkx, A.S.Meyer, J.D.Mikkelsen, S.Larsen. Design of Thermostable Rhamnogalacturonan Lyase Mutants From Bacillus Licheniformis By Combination of Targeted Single Point Mutations. Appl.Microbiol.Biotechnol. V. 98 4521 2014.
ISSN: ISSN 0175-7598
PubMed: 24419797
DOI: 10.1007/S00253-013-5483-8
Page generated: Sat Dec 12 04:41:59 2020

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